# List of top-scoring protein chains for t2k-100-30-alpha hidden Markov model. # HMM and HMM E-value scores computed by SAM (c) 1992-2001 Regents of the University of California, Santa Cruz # Sequence Alignment and Modeling Software System # http://www.cse.ucsc.edu/research/compbio/sam.html # ----------------- Citations (SAM, SAM-T99, HMMs) -------------------- # R. Hughey, A. Krogh, Hidden Markov models for sequence analysis: # Extension and analysis of the basic method, CABIOS 12:95-107, 1996. # K. Karplus, C. Barrett, R. Hughey, Hidden Markov models for detecting # remote protein homologies, Bioinformatics 14(10):846-856, 1998. # A. Krogh et al., Hidden Markov models in computational biology: # Applications to protein modeling, JMB 235:1501-1531, Feb 1994. # # FSSP representative for each protein chain taken from FSSP: # ------------------Citations (FSSP) ----------------------------------- # L. Holm and C. Sander (1996) Mapping the protein universe. Science 273:595-602. # #SCOP domains found in each protein chain taken from SCOP: # ------------------Citations (SCOP) ----------------------------------- #Murzin A. G., Brenner S. E., Hubbard T., Chothia C. (1995). #SCOP: a structural classification of proteins database for the investigation of sequences and structures. #J. Mol. Biol. 247, 536-540. Sequence_ID Length Target_Evalue FSSP-rep SCOP_domain SCOP_suid 5S 5N 12S 6S 12S 10N 1e6bA 221 2.39e-01 1e6bA a.45.1.1 59294 c.47.1.5 59295 1cseE 274 1.32e+00 1gci c.41.1.1 32481 1jmtB 28 2.60e+00 1ocrD 147 2.73e+00 1ocrD f.23.1.1 43541 1lml 478 2.81e+00 1lml d.92.1.3 40295 1k0mA 241 3.52e+00 a.45.1.1 67949 c.47.1.5 67950 2occD 147 4.07e+00 1ocrD f.23.1.1 43521 1k1eA 180 4.36e+00 c.108.1.5 67995 1j8dA 180 4.52e+00 c.108.1.5 66433 1vig 71 4.56e+00 1vih d.51.1.1 38806 1k4wA 252 5.67e+00 a.123.1.1 72068 1jihA 531 6.01e+00 e.8.1.5 66740 1h8eI 50 6.15e+00 1e79I a.137.8.1 60758 1ichA 112 6.89e+00 a.77.1.2 71182 5hpgA 84 6.95e+00 5hpgA g.14.1.1 44642 1k0nA 241 7.34e+00 a.45.1.1 67953 c.47.1.5 67954 1vih 71 8.72e+00 1vih d.51.1.1 38807 1e4uA 78 9.00e+00 1e4uA g.44.1.1 59231 1di6A 195 9.72e+00 1di6A c.57.1.1 33863 1aw0 72 9.81e+00 1aw0 d.58.17.1 39342 1tc3C 51 1.03e+01 1tc3C a.4.1.2 16025 1har 216 1.07e+01 1rthA e.8.1.2 43025 1n3lA 372 1.09e+01 c.26.1.1 79966 1cmcA 104 1.10e+01 1cmbA a.43.1.2 17462 1jpaA 312 1.13e+01 d.144.1.7 67011 1smpI 101 1.20e+01 1smpI b.61.2.1 27417 1kg0C 136 1.29e+01 d.169.1.1 72445 1bh6A 274 1.33e+01 1gci c.41.1.1 32487 1pls 113 1.38e+01 1pls b.55.1.1 26965 1qmpA 130 1.42e+01 1dz3A c.23.1.1 31106 1dt4A 73 1.45e+01 1dt4A d.51.1.1 38799 1be3G 81 1.46e+01 1be3G f.23.13.1 43669 1pmlA 86 1.48e+01 5hpgA g.14.1.1 44632 1mjoA 104 1.51e+01 1cmbA a.43.1.2 17466 1cmbA 104 1.54e+01 1cmbA a.43.1.2 17460 1dz3A 130 1.55e+01 1dz3A c.23.1.1 31105 1bb9 115 1.58e+01 1bb9 b.34.2.1 24554 1fadA 99 1.60e+01 1fadA a.77.1.2 18428 1g3uA 214 1.65e+01 c.37.1.1 65132 1bgk 37 1.82e+01 1bgk g.19.1.1 44875 1cmaA 104 1.95e+01 1cmbA a.43.1.2 17486 1gbs 185 2.08e+01 153l d.2.1.5 36986 1k4zA 159 2.16e+01 b.80.5.1 72070 1qcrG 70 2.17e+01 1be3G f.23.13.1 43677 1iae 200 2.31e+01 1iae d.92.1.8 40311 1fu9A 36 2.31e+01 1fu9A g.37.1.2 45074 1iab 200 2.34e+01 1iae d.92.1.8 40312 1ast 200 2.36e+01 1iae d.92.1.8 40310 1g1pA 33 2.42e+01 1g1pA g.3.6.1 44099 153l 185 2.46e+01 153l d.2.1.5 36984 1gtvA 214 2.50e+01 c.37.1.1 70537 1hfx 123 2.61e+01 3lzt d.2.1.2 36600 1nixA 34 2.83e+01 g.3.6.2 80541 1tgsI 56 2.92e+01 1tgsI g.15.1.1 44706 1e5eA 404 2.93e+01 1ibjA c.67.1.3 59265 1e79I 50 2.94e+01 1e79I a.137.8.1 19647 2trcP 217 3.11e+01 1b9yC c.47.1.6 33051 1dd5A 185 3.16e+01 1dd5A d.67.3.1 39564 1cfzA 162 3.23e+01 1cfzA c.56.1.1 33754 1go3F 107 3.41e+01 a.60.8.2 65407 1sfe 180 3.44e+01 1sfe a.4.2.1 16073 c.55.7.1 33748 1gcpA 70 3.44e+01 1gcpA b.34.2.1 60430 1gk8I 140 3.47e+01 d.73.1.1 65242 1ci9A 392 3.58e+01 e.3.1.1 64767 1jfrA 262 3.69e+01 1jfrA c.69.1.16 34724 1smtB 122 3.77e+01 1smtA a.4.5.5 16110 1ffkR 66 3.77e+01 1ffkR g.39.1.6 45152 1erd 40 3.87e+01 1erd a.10.1.1 16362